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* gnu: isc-dhcp: Update bundled bind to 9.9.9-P3 [fixes CVE-2016-2776].•••* gnu/packages/admin.scm (isc-dhcp)[inputs]: Update bundled bind to 9.9.9-P3. Leo Famulari2016-09-27
* gnu: bind: Update to 9.10.4-P3 [fixes CVE-2016-2776].•••* gnu/packages/dns.scm (bind): Update to 9.10.4-P3. Leo Famulari2016-09-27
* gnu: Add python-q.•••* gnu/packages/python.scm (python-q, python2-q): New variables. Signed-off-by: Leo Famulari <leo@famulari.name> Stefan Reichoer2016-09-27
* gnu: expat: Fix regression caused by fix for CVE-2016-0718.•••* gnu/packages/xml.scm (expat)[replacement]: New field. (expat/fixed): New variable. * gnu/packages/patches/expat-CVE-2016-0718-fix-regression.patch: New file. * gnu/local.mk (dist_patch_DATA): Add it. Signed-off-by: Leo Famulari <leo@famulari.name> Leo Famulari2016-09-27
* gnu: Add gctp.•••* gnu/packages/maths.scm (gctp): New variable. Signed-off-by: Leo Famulari <leo@famulari.name> Thomas Danckaert2016-09-27
* gnu: Add gloox.•••* gnu/packages/messaging.scm (gloox): New variable. Signed-off-by: Leo Famulari <leo@famulari.name> ng02016-09-27
* gnu: femtolisp: Don't build on mips64el or armhf.•••* gnu/packages/lisp.scm (femtolisp)[supported-systems]: New field, remove support for mips64el and armhf. Signed-off-by: Leo Famulari <leo@famulari.name> ng02016-09-27
* gnu: Add gobby.•••* gnu/packages/gobby.scm (gobby): New variable. Andy Wingo2016-09-27
* gnu: Add obby.•••* gnu/packages/gobby.scm (obby): New variable. Andy Wingo2016-09-27
* gnu: Add libnet6.•••* gnu/packages/gobby.scm: New file. * gnu/local.mk (GNU_SYSTEM_MODULES): Add new file. Andy Wingo2016-09-27
* gnu: Add libxml++-2.•••* gnu/packages/gnome.scm (libxml++-2): New variable. Andy Wingo2016-09-27
* gnu: New default Dovecot service postmaster_address•••* gnu/services/mail.scm (dovecot-configuration): Change default for postmaster-address, as dovecot is now requiring a non-empty value and will fail to start up otherwise. * doc/guix.texi (Mail Services): Update. Andy Wingo2016-09-27
* gnu: aria2: Update to 1.27.1.•••* gnu/packages/bittorrent.scm (aria2): Update to 1.27.1. Efraim Flashner2016-09-27
* gnu: python-plastid: Update to 1.4.6.•••* gnu/packages/bioinformatics.scm (python-plastid, python2-plastid): Update to 1.4.6. [propagated-inputs]: Add python-termcolor. Ben J Woodcroft2016-09-27
* gnu: Add python-termcolor.•••* gnu/packages/python.scm (python-termcolor, python2-termcolor): New variables. Ben J Woodcroft2016-09-27
* gnu: python-pysam: Enable tests.•••* gnu/packages/bioinformatics.scm (python-pysam)[source]: Change from PyPi to source archive due to missing test data. [arguments]: Add check phase after install. [native-inputs]: Add python-nose, samtools and bcftools. Marius Bakke2016-09-27
* gnu: python-pysam: Delete bundled htslib.•••* gnu/packages/bioinformatics.scm (python-pysam)[source]: Add snippet to delete htslib. [arguments]: Add htslib flags in 'set-flags phase. [propagated-inputs]: New field. Add htslib. Marius Bakke2016-09-27
* gnu: python-pysam: Use 'modify-phases'.•••* gnu/packages/bioinformatics.scm (python-pysam)[arguments]: Use 'modify-phases'. Marius Bakke2016-09-27
* gnu: Add bcftools.•••* gnu/packages/bioinformatics.scm (bcftools): New variable. Marius Bakke2016-09-27
* gnu: python2-pbcore: Update to 1.2.10.•••* gnu/packages/bioinformatics.scm (python2-pbcore): Update to 1.2.10. [propagated-inputs]: New field. Add python2-pyxb. Marius Bakke2016-09-27
* gnu: Add python-pyxb.•••* gnu/packages/xml.scm (python-pyxb, python2-pyxb): New variables. Marius Bakke2016-09-27
* gnu: python-pysam: Update to 0.9.1.4.•••* gnu/packages/bioinformatics.scm (python-pysam, python2-pysam): Update to 0.9.1.4. Marius Bakke2016-09-27
* guix build: Gracefully handle packages without source for '-S'.•••Fixes <http://bugs.gnu.org/22836>. Reported by Ricardo Wurmus <rekado@elephly.net>. * guix/scripts/build.scm (options->derivations): Gracefully handle (package-source p) = #f. Ludovic Courtès2016-09-27
* Add missing exports.•••Reported by Taylan Ulrich Bayırlı/Kammer <taylanbayirli@gmail.com> at <https://lists.gnu.org/archive/html/guix-devel/2016-09/msg01686.html>. * gnu/system/file-systems.scm (%tty-gid): Export. * guix/build-system/python.scm (default-python, default-python2): Export. Ludovic Courtès2016-09-27
* gnu: openssl-next: Update to 1.1.0b [fixes CVE-2016-6309].•••* gnu/packages/tls.scm (openssl-next): Update to 1.1.0b. Leo Famulari2016-09-26
* gnu: openssl: Update replacement to 1.0.2j [fixes CVE-2016-7052].•••* gnu/packages/tls.scm (openssl): Update replacement to 1.0.2j. (openssl-1.0.2i): Replace with... (openssl-1.0.2j): ... new variable. Leo Famulari2016-09-26
* gnu: libftdi: Propagate the libusb input.•••* gnu/packages/libftdi.scm (libftdi): Change libusb from an input to a propagated-input. Signed-off-by: Leo Famulari <leo@famulari.name> Danny Milosavljevic2016-09-26
* gnu: ncbi-vdb: Only build on i686 and x86_64.•••* gnu/packages/bioinformatics.scm (ncbi-vdb)[supported-systems]: Only build on i686 and x86_64. [arguments]: Add mandatory "-msse2" flag to CFLAGS. Ricardo Wurmus2016-09-26
* gnu: ghc-pandoc: Update to 1.17.2.•••* gnu/packages/haskell.scm (ghc-pandoc): Update to 1.17.2. Ricardo Wurmus2016-09-26
* gnu: ghc-texmath: Update to 0.8.6.5.•••* gnu/packages/haskell.scm (ghc-texmath): Update to 0.8.6.5. Ricardo Wurmus2016-09-26
* gnu: ghc-cmark: Update to 0.5.3.1.•••* gnu/packages/haskell.scm (ghc-cmark): Update to 0.5.3.1. Ricardo Wurmus2016-09-26
* gnu: ghc-highlighting-kate: Update to 0.6.3.•••* gnu/packages/haskell.scm (ghc-highlighting-kate): Update to 0.6.3. Ricardo Wurmus2016-09-26
* gnu: ghc-pandoc-types: Update to 1.16.1.1.•••* gnu/packages/haskell.scm (ghc-pandoc-types): Update to 1.16.1.1. Ricardo Wurmus2016-09-26
* gnu: ghc-tagsoup: Update to 0.14.•••* gnu/packages/haskell.scm (ghc-tagsoup): Update to 0.14. Ricardo Wurmus2016-09-26
* gnu: tbb: Fail on test errors.•••* gnu/packages/tbb.scm (tbb)[arguments]: Add phase "fail-on-test-errors". Ricardo Wurmus2016-09-26
* gnu: ghc-tls: Update to 1.3.8.•••* gnu/packages/haskell.scm (ghc-tls): Update to 1.3.8. Ricardo Wurmus2016-09-26
* gnu: tbb: Use modify-phases syntax.•••* gnu/packages/tbb.scm (tbb)[arguments]: Use "modify-phases" syntax. Ricardo Wurmus2016-09-26
* gnu: vsearch: Update to 2.1.1.•••* gnu/packages/bioinformatics.scm (vsearch): Update to 2.1.1. Ben Woodcroft2016-09-26
* gnu: azr3: Fix libsigc++ build errors.•••* gnu/packages/audio.scm (azr3)[arguments]: Add "-std=gnu++11" flag. [source]: Add patch. * gnu/packages/patches/azr3.patch: New file. * gnu/local.mk (dist_patch_DATA): Add it. Ricardo Wurmus2016-09-26
* gnu: qtractor: Update to 0.7.9.•••* gnu/packages/music.scm (qtractor): Update to 0.7.9. Ricardo Wurmus2016-09-26
* profiles: Build GTK+ input module cache.•••* guix/profiles.scm (gtk-im-modules): New procedure. (%default-profile-hooks): Add it. Ricardo Wurmus2016-09-26
* profiles: manifest-lookup-package: Optionally match version prefix.•••* guix/profiles.scm (manifest-lookup-package): Optionally filter store item matches by version prefix. Ricardo Wurmus2016-09-26
* gnu: Add r-txdb-hsapiens-ucsc-hg19-knowngene.•••* gnu/packages/bioinformatics.scm (r-txdb-hsapiens-ucsc-hg19-knowngene): New variable. Ricardo Wurmus2016-09-26
* gnu: Add r-grohmm.•••* gnu/packages/bioinformatics.scm (r-grohmm): New variable. Ricardo Wurmus2016-09-26
* gnu: Add r-systempiper.•••* gnu/packages/bioinformatics.scm (r-systempiper): New variable. Ricardo Wurmus2016-09-26
* gnu: Add r-shortread.•••* gnu/packages/bioinformatics.scm (r-shortread): New variable. Ricardo Wurmus2016-09-26
* gnu: Add r-gostats.•••* gnu/packages/bioinformatics.scm (r-gostats): New variable. Ricardo Wurmus2016-09-26
* gnu: Add r-category.•••* gnu/packages/bioinformatics.scm (r-category): New variable. Ricardo Wurmus2016-09-26
* gnu: Add r-gseabase.•••* gnu/packages/bioinformatics.scm (r-gseabase): New variable. Ricardo Wurmus2016-09-26
* gnu: Add r-rbgl.•••* gnu/packages/bioinformatics.scm (r-rbgl): New variable. Ricardo Wurmus2016-09-26
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